Physiol. Genomics -- Table of Contents (November 2009, 39 [3])

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Reviews:

Philip R. O. Payne, Peter J. Embi, and Chandan K. Sen: Translational informatics: enabling high-throughput research paradigms
Physiol. Genomics 39: 131-140, 2009. First published September 8, 2009; doi:10.1152/physiolgenomics.00050.2009 [Abstract] [Full Text] [PDF]

Translational Physiology:

Varuna C. Banduseela, Julien Ochala, Yi-Wen Chen, Hanna Göransson, Holly Norman, Peter Radell, Lars I. Eriksson, Eric P. Hoffman, and Lars Larsson: Gene expression and muscle fiber function in a porcine ICU model
Physiol. Genomics 39: 141-159, 2009. First published August 25, 2009; doi:10.1152/physiolgenomics.00026.2009 [Abstract] [Full Text] [PDF]

Tatiana V. Tkatchenko, Ricardo A. Moreno-Rodriguez, Simon J. Conway, Jeffery D. Molkentin, Roger R. Markwald, and Andrei V. Tkatchenko: Lack of periostin leads to suppression of Notch1 signaling and calcific aortic valve disease
Physiol. Genomics 39: 160-168, 2009. First published September 1, 2009; doi:10.1152/physiolgenomics.00078.2009 [Abstract] [Full Text] [PDF]

Editorial Focus:

Brynn H. Voy and Bruce J. Aronow: Embrace diversity! Systems genetics-enabled discovery of disease networks
Physiol. Genomics 39: 169-171, 2009. First published September 29, 2009; doi:10.1152/physiolgenomics.00158.2009 [Full Text] [PDF]

Call for Papers: Computational Modeling of Physiological Systems:

Keith R. Shockley, David Witmer, Sarah L. Burgess-Herbert, Beverly Paigen, and Gary A. Churchill: Effects of atherogenic diet on hepatic gene expression across mouse strains
Physiol. Genomics 39: 172-182, 2009. First published August 11, 2009; doi:10.1152/physiolgenomics.90350.2008 [Abstract] [Full Text] [PDF] [Supplemental Figures and Tables]

Call for Papers: Comparative Genomics:

Gerardo M. Nava, David Y. Lee, Javier H. Ospina, Shi-Ying Cai, and H. Rex Gaskins: Genomic analyses reveal a conserved glutathione homeostasis pathway in the invertebrate chordate Ciona intestinalis
Physiol. Genomics 39: 183-194, 2009. First published May 26, 2009; doi:10.1152/physiolgenomics.00025.2009 [Abstract] [Full Text] [PDF] [Supplemental Tables] [Corrigendum]

Research Articles:

Hee Keun Lee, Mee Hyun Song, Myengmo Kang, Jung Tae Lee, Kyoung-Ah Kong, Su-Jin Choi, Kyu Yup Lee, Hanka Venselaar, Gert Vriend, Won-Sang Lee, Hong-Joon Park, Taeg Kyu Kwon, Jinwoong Bok, and Un-Kyung Kim: Clinical and molecular characterizations of novel POU3F4 mutations reveal that DFN3 is due to null function of POU3F4 protein
Physiol. Genomics 39: 195-201, 2009. First published August 11, 2009; doi:10.1152/physiolgenomics.00100.2009 [Abstract] [Full Text] [PDF] [Supplemental Figures]

Cheolho Sim and David L. Denlinger: Transcription profiling and regulation of fat metabolism genes in diapausing adults of the mosquito Culex pipiens
Physiol. Genomics 39: 202-209, 2009. First published August 25, 2009; doi:10.1152/physiolgenomics.00095.2009 [Abstract] [Full Text] [PDF] [Supplemental Tables]

Letizia Pitto, Milena Rizzo, Marcella Simili, Daria Colligiani, Monica Evangelista, Alberto Mercatanti, Laura Mariani, Federico Cremisi, and Giuseppe Rainaldi: miR-290 acts as a physiological effector of senescence in mouse embryo fibroblasts
Physiol. Genomics 39: 210-218, 2009. First published September 1, 2009; doi:10.1152/physiolgenomics.00085.2009 [Abstract] [Full Text] [PDF]

John J. McCarthy, Karyn A. Esser, Charlotte A. Peterson, and Esther E. Dupont-Versteegden: Evidence of MyomiR network regulation of β-myosin heavy chain gene expression during skeletal muscle atrophy
Physiol. Genomics 39: 219-226, 2009. First published August 18, 2009; doi:10.1152/physiolgenomics.00042.2009 [Abstract] [Full Text] [PDF] [Supplemental Figures and Tables]

Yuta Yamamoto, Toshihito Tanahashi, Tomoko Kawai, Sachiko Chikahisa, Sakurako Katsuura, Kensei Nishida, Shigetada Teshima-Kondo, Hiroyoshi Sei, and Kazuhito Rokutan: Changes in behavior and gene expression induced by caloric restriction in C57BL/6 mice
Physiol. Genomics 39: 227-235, 2009. First published September 8, 2009; doi:10.1152/physiolgenomics.00082.2009 [Abstract] [Full Text] [PDF] [Supplemental Figures and Tables]

Cover Caption:

Cover

Cover: Experimental pulmonary embolism (PE) causes right ventricular heart strain and acute inflammation followed by tissue remodeling in rats. The right ventricular outflow tract of the heart appears translucent 6 wk after PE compared with the apex region (top inset). Histological changes, shown with Masson's trichrome stain, indicate a transition between heart muscle (red myocytes in cross section) and the remodeling tissue in the PE outflow region, where myofibroblast and monocyte cells are present (dark nuclei), fibrotic collagen deposition (blue) occurs, and few myocytes (red) remain (top). In contrast, the outflow tract and apex of the normal hearts are red throughout, and the heart (bottom inset) and histology show normal myocyte structure in cross section (red) with normal collagen (blue) distribution (bottom). DNA microarray analysis demonstrated major transcriptional changes that were focused in the outflow region compared with the apex of the PE hearts or the same regions of the normal heart (right; red and green indicate up- and downregulation of gene expression in normal apex, normal outflow, PE apex, and PE outflow; top 20 red genes, bottom 20 green genes, and 15 genes at the red-green boundary are shown). Consistent with myocyte depletion, genes for cellular respiration and energy metabolism were decreased, and genes for leukocyte cell adhesion, extracellular matrix proteins, and signal pathways for wound healing were increased in the PE outflow tract. For details, see Zagorski J, Obraztsova M, Gellar MA, Kline JA, and Watts JA. Transcriptional changes in right ventricular tissues are enriched in the outflow tract compared with the apex during chronic pulmonary embolism in rats. Physiol Genomics 39: 61–71, 2009.